Results for "R"
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CNIDARIA: fast, reference-free phylogenomic clustering
...on of biological specimens is a major requirement for a range of appl.... Reference-free methods analyse unprocessed sequencing data withou...ily large genomes and arbitrarily large phylogenetic distances. Re...enomic and transcriptomic datasets from 4 kingdoms, achieving 100%...2931 days ago
- In a nutshell Anvi’o is an analysis and visualization platform for ‘omics data. Please find the methods paper here: https://peerj.com/articles/...out the help of many people who directly or indirectly contribute...ects/anvio Paper https://peerj.com/articles/1839/
2931 days ago
- ...is and visulization of functional profiles for genes and gene clustersBiocon...analyze and visualize functional profiles (GO and KEGG) of gene a...gmail.com> with contributions from Li-Gen Wang and Giovanni Da...s.” OMICS: A Journal of Integrative Biology, 16(5), pp. 284-...
2931 days ago
- DarkHorse is a bioinformatic method for rapid, automated identificati...ntial ortholog matches from a reference database of amino aci...se match sequences and the query genome. These scores are use...d, since they are highly conserved among closely related orga...
2926 days ago
- Horizontal gene transfer (HGT), the transfer of genetic material between organisms, is cruc...nal distinguishing the transferred sequence from ancestral (v...ormally nearly identical. Nevertheless, there is a great impo...ated strains. The method confirms candidate transferred genes...
2926 days ago
Linux command line exercises for NGS data processing
The purpose of this tutorial is to introduce students to the frequently used tools for NGS analysis as well as givin...writing one-liners. Copy the required files to your current.../]$ cp -r /home/opt/MScBioinformatics/linuxTutorial . [uzi@q...mand on awk will make it easier to understand advanced tutori...2926 days ago
- SAMtools: Primer / Tutorial by Ethan Cerami, Ph.D.keywords: samtools, next-gen, next-generation, sequencing, bowtie, sam...tutorial, how-to, introductionRevisions 1.0...uction to SAMtools, and is geared towards those new to next-g...
2925 days ago
- Reads simulator Wgsim is a small tool for simulating sequence reads from a reference genome. It...ploid genomes with SNPs and insertion/deletion (INDEL) polymorp...not generate INDEL sequencing errors, but this can be partly c...luate the accuracy of a mapper or a SNP caller with wgsim_eval....
2925 days ago
- ...BB is a command line based bioinformatics suite to analyze biological data acquired through varied avenues of biological experiments. CSBB is implemented in...kground for specific modules. Major focus of CSBB is to allow use...x, UNIX, MAC OS and Windows platforms. Currently CSBB provides 1...
2919 days ago
- ...s This utility makes it easy to identify what are the properties of a read based on it...ely, to find what the SAM Flag value would be for a given combination of proper...elow. The encoded properties will be listed under Summary below, to the right.
2918 days ago
